Multiple sequence alignment - TraesCS5B01G036700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5B01G036700 chr5B 100.000 3368 0 0 1 3368 40979944 40983311 0.000000e+00 6220.0
1 TraesCS5B01G036700 chr5B 79.114 158 26 7 3127 3278 647384410 647384566 5.950000e-18 102.0
2 TraesCS5B01G036700 chr5D 94.066 2713 104 20 683 3368 43301679 43304361 0.000000e+00 4065.0
3 TraesCS5B01G036700 chr5D 94.892 372 18 1 1 371 43300159 43300530 6.260000e-162 580.0
4 TraesCS5B01G036700 chr5A 95.538 1636 65 4 752 2381 33120855 33122488 0.000000e+00 2610.0
5 TraesCS5B01G036700 chr5A 92.944 411 25 3 1 407 33120267 33120677 2.240000e-166 595.0
6 TraesCS5B01G036700 chr5A 97.273 110 2 1 607 715 33120746 33120855 5.740000e-43 185.0
7 TraesCS5B01G036700 chr6D 81.095 201 26 10 3135 3326 76129516 76129713 2.090000e-32 150.0
8 TraesCS5B01G036700 chr3A 78.995 219 39 6 3088 3302 66259141 66258926 3.500000e-30 143.0
9 TraesCS5B01G036700 chr3A 97.561 41 1 0 483 523 641638710 641638750 1.680000e-08 71.3
10 TraesCS5B01G036700 chr2D 84.173 139 16 4 3139 3276 46701246 46701113 2.730000e-26 130.0
11 TraesCS5B01G036700 chr2D 77.143 245 36 11 3137 3361 648292771 648292527 1.270000e-24 124.0
12 TraesCS5B01G036700 chr2D 75.352 284 44 13 3094 3361 449561047 449561320 2.750000e-21 113.0
13 TraesCS5B01G036700 chr2D 95.122 41 2 0 483 523 118892296 118892336 7.800000e-07 65.8
14 TraesCS5B01G036700 chr3D 76.923 234 37 9 3145 3361 7579990 7579757 2.120000e-22 117.0
15 TraesCS5B01G036700 chr3D 97.561 41 1 0 486 526 463680833 463680793 1.680000e-08 71.3
16 TraesCS5B01G036700 chr3D 100.000 30 0 0 1742 1771 45095676 45095647 4.690000e-04 56.5
17 TraesCS5B01G036700 chr7D 76.793 237 35 11 3145 3361 70900257 70900493 7.640000e-22 115.0
18 TraesCS5B01G036700 chrUn 97.561 41 1 0 486 526 263357774 263357734 1.680000e-08 71.3
19 TraesCS5B01G036700 chrUn 95.122 41 2 0 483 523 263357932 263357972 7.800000e-07 65.8
20 TraesCS5B01G036700 chr4A 97.561 41 1 0 486 526 641837720 641837680 1.680000e-08 71.3
21 TraesCS5B01G036700 chr4A 95.122 41 2 0 483 523 641837878 641837918 7.800000e-07 65.8
22 TraesCS5B01G036700 chr3B 100.000 30 0 0 1742 1771 70851203 70851174 4.690000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G036700 chr5B 40979944 40983311 3367 False 6220.0 6220 100.000000 1 3368 1 chr5B.!!$F1 3367
1 TraesCS5B01G036700 chr5D 43300159 43304361 4202 False 2322.5 4065 94.479000 1 3368 2 chr5D.!!$F1 3367
2 TraesCS5B01G036700 chr5A 33120267 33122488 2221 False 1130.0 2610 95.251667 1 2381 3 chr5A.!!$F1 2380

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
444 448 0.030369 CTACTCGTACGGGGCACATC 59.970 60.0 21.15 0.0 0.00 3.06 F
510 514 0.034477 AGCAACCTGTAAATCCCCCG 60.034 55.0 0.00 0.0 0.00 5.73 F
533 537 0.042131 AACTCCGTATGTGAGGGGGA 59.958 55.0 5.70 0.0 35.33 4.81 F
1359 2232 0.992072 CCACTGCGTTCATCTACACG 59.008 55.0 0.00 0.0 39.49 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1359 2232 0.385723 GGATATCGACGTCGCAGGTC 60.386 60.000 32.19 23.61 39.6 3.85 R
2043 2916 1.363744 GCGACTTGGAGATGTTCAGG 58.636 55.000 0.00 0.00 0.0 3.86 R
2050 2923 2.125512 GTGCGGCGACTTGGAGAT 60.126 61.111 12.98 0.00 0.0 2.75 R
2583 3470 0.253044 GCTGGATCTGGTGGCTTACA 59.747 55.000 0.00 0.00 0.0 2.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
150 153 3.714798 TGTTTCTCCTCCTTTGTACCAGT 59.285 43.478 0.00 0.00 0.00 4.00
189 192 3.784338 TGCACCTTTCTTCTTTTTGCTG 58.216 40.909 0.00 0.00 0.00 4.41
200 203 6.738114 TCTTCTTTTTGCTGGTTCATGTTAG 58.262 36.000 0.00 0.00 0.00 2.34
323 326 2.815647 GCTAGACACACGGGCTGC 60.816 66.667 0.00 0.00 0.00 5.25
336 339 1.270094 CGGGCTGCTGAATACGGATTA 60.270 52.381 0.00 0.00 0.00 1.75
354 358 5.981315 CGGATTAAACGGTTCTGATTAGCTA 59.019 40.000 0.00 0.00 0.00 3.32
372 376 5.620738 AGCTAGCATAGTTTGATTGGAGA 57.379 39.130 18.83 0.00 41.93 3.71
379 383 6.774656 AGCATAGTTTGATTGGAGATTAAGGG 59.225 38.462 0.00 0.00 0.00 3.95
389 393 2.127708 GAGATTAAGGGGGAAGCAGGA 58.872 52.381 0.00 0.00 0.00 3.86
396 400 3.256960 GGGAAGCAGGACCCACCA 61.257 66.667 0.00 0.00 44.96 4.17
397 401 2.840753 GGGAAGCAGGACCCACCAA 61.841 63.158 0.00 0.00 44.96 3.67
404 408 0.464735 CAGGACCCACCAACGTGAAA 60.465 55.000 0.00 0.00 43.14 2.69
405 409 0.476771 AGGACCCACCAACGTGAAAT 59.523 50.000 0.00 0.00 43.14 2.17
407 411 1.268625 GGACCCACCAACGTGAAATTC 59.731 52.381 0.00 0.00 43.14 2.17
408 412 0.948678 ACCCACCAACGTGAAATTCG 59.051 50.000 0.00 0.00 43.14 3.34
409 413 0.239879 CCCACCAACGTGAAATTCGG 59.760 55.000 0.00 0.00 43.14 4.30
410 414 1.231221 CCACCAACGTGAAATTCGGA 58.769 50.000 0.00 0.00 43.14 4.55
411 415 1.196808 CCACCAACGTGAAATTCGGAG 59.803 52.381 0.00 0.00 43.14 4.63
412 416 1.196808 CACCAACGTGAAATTCGGAGG 59.803 52.381 0.00 0.00 43.14 4.30
415 419 0.688487 AACGTGAAATTCGGAGGGGA 59.312 50.000 0.00 0.00 0.00 4.81
417 421 1.090052 CGTGAAATTCGGAGGGGAGC 61.090 60.000 0.00 0.00 0.00 4.70
418 422 0.035439 GTGAAATTCGGAGGGGAGCA 60.035 55.000 0.00 0.00 0.00 4.26
419 423 0.695924 TGAAATTCGGAGGGGAGCAA 59.304 50.000 0.00 0.00 0.00 3.91
420 424 1.284785 TGAAATTCGGAGGGGAGCAAT 59.715 47.619 0.00 0.00 0.00 3.56
421 425 2.507886 TGAAATTCGGAGGGGAGCAATA 59.492 45.455 0.00 0.00 0.00 1.90
422 426 3.053991 TGAAATTCGGAGGGGAGCAATAA 60.054 43.478 0.00 0.00 0.00 1.40
423 427 3.884037 AATTCGGAGGGGAGCAATAAT 57.116 42.857 0.00 0.00 0.00 1.28
438 442 3.314553 CAATAATGCTACTCGTACGGGG 58.685 50.000 21.15 13.29 0.00 5.73
439 443 0.670162 TAATGCTACTCGTACGGGGC 59.330 55.000 21.15 14.65 0.00 5.80
440 444 1.324740 AATGCTACTCGTACGGGGCA 61.325 55.000 21.15 20.04 0.00 5.36
441 445 2.012902 ATGCTACTCGTACGGGGCAC 62.013 60.000 21.15 8.34 32.52 5.01
442 446 2.703798 GCTACTCGTACGGGGCACA 61.704 63.158 21.15 0.31 0.00 4.57
443 447 2.012902 GCTACTCGTACGGGGCACAT 62.013 60.000 21.15 0.00 0.00 3.21
444 448 0.030369 CTACTCGTACGGGGCACATC 59.970 60.000 21.15 0.00 0.00 3.06
445 449 1.386525 TACTCGTACGGGGCACATCC 61.387 60.000 21.15 0.00 0.00 3.51
446 450 2.363276 TCGTACGGGGCACATCCT 60.363 61.111 16.52 0.00 34.39 3.24
447 451 1.076850 TCGTACGGGGCACATCCTA 60.077 57.895 16.52 0.00 34.39 2.94
448 452 1.066918 CGTACGGGGCACATCCTAC 59.933 63.158 7.57 0.00 34.39 3.18
449 453 1.389609 CGTACGGGGCACATCCTACT 61.390 60.000 7.57 0.00 34.39 2.57
450 454 0.104304 GTACGGGGCACATCCTACTG 59.896 60.000 0.00 0.00 34.39 2.74
451 455 1.046472 TACGGGGCACATCCTACTGG 61.046 60.000 0.00 0.00 34.39 4.00
452 456 2.367202 CGGGGCACATCCTACTGGT 61.367 63.158 0.00 0.00 34.39 4.00
453 457 1.910580 CGGGGCACATCCTACTGGTT 61.911 60.000 0.00 0.00 34.39 3.67
454 458 0.331616 GGGGCACATCCTACTGGTTT 59.668 55.000 0.00 0.00 34.39 3.27
455 459 1.272480 GGGGCACATCCTACTGGTTTT 60.272 52.381 0.00 0.00 34.39 2.43
456 460 2.525368 GGGCACATCCTACTGGTTTTT 58.475 47.619 0.00 0.00 34.39 1.94
457 461 3.562609 GGGGCACATCCTACTGGTTTTTA 60.563 47.826 0.00 0.00 34.39 1.52
458 462 4.278310 GGGCACATCCTACTGGTTTTTAT 58.722 43.478 0.00 0.00 34.39 1.40
459 463 4.097892 GGGCACATCCTACTGGTTTTTATG 59.902 45.833 0.00 0.00 34.39 1.90
460 464 4.097892 GGCACATCCTACTGGTTTTTATGG 59.902 45.833 0.00 0.00 34.23 2.74
461 465 4.097892 GCACATCCTACTGGTTTTTATGGG 59.902 45.833 0.00 0.00 34.23 4.00
462 466 5.261216 CACATCCTACTGGTTTTTATGGGT 58.739 41.667 0.00 0.00 34.23 4.51
463 467 5.714806 CACATCCTACTGGTTTTTATGGGTT 59.285 40.000 0.00 0.00 34.23 4.11
464 468 6.887545 CACATCCTACTGGTTTTTATGGGTTA 59.112 38.462 0.00 0.00 34.23 2.85
465 469 7.559897 CACATCCTACTGGTTTTTATGGGTTAT 59.440 37.037 0.00 0.00 34.23 1.89
466 470 8.783903 ACATCCTACTGGTTTTTATGGGTTATA 58.216 33.333 0.00 0.00 34.23 0.98
467 471 9.635404 CATCCTACTGGTTTTTATGGGTTATAA 57.365 33.333 0.00 0.00 34.23 0.98
468 472 9.862149 ATCCTACTGGTTTTTATGGGTTATAAG 57.138 33.333 0.00 0.00 32.28 1.73
469 473 8.276477 TCCTACTGGTTTTTATGGGTTATAAGG 58.724 37.037 0.00 0.00 32.28 2.69
470 474 8.276477 CCTACTGGTTTTTATGGGTTATAAGGA 58.724 37.037 0.00 0.00 33.03 3.36
471 475 7.949690 ACTGGTTTTTATGGGTTATAAGGAC 57.050 36.000 0.00 0.00 33.03 3.85
472 476 7.705700 ACTGGTTTTTATGGGTTATAAGGACT 58.294 34.615 0.00 0.00 33.03 3.85
473 477 7.614192 ACTGGTTTTTATGGGTTATAAGGACTG 59.386 37.037 0.00 0.00 33.03 3.51
474 478 7.471890 TGGTTTTTATGGGTTATAAGGACTGT 58.528 34.615 0.00 0.00 33.03 3.55
475 479 7.394923 TGGTTTTTATGGGTTATAAGGACTGTG 59.605 37.037 0.00 0.00 33.03 3.66
476 480 7.255569 GTTTTTATGGGTTATAAGGACTGTGC 58.744 38.462 0.00 0.00 33.03 4.57
477 481 2.684001 TGGGTTATAAGGACTGTGCG 57.316 50.000 0.00 0.00 0.00 5.34
478 482 1.296727 GGGTTATAAGGACTGTGCGC 58.703 55.000 0.00 0.00 0.00 6.09
479 483 1.134491 GGGTTATAAGGACTGTGCGCT 60.134 52.381 9.73 0.00 0.00 5.92
480 484 2.202566 GGTTATAAGGACTGTGCGCTC 58.797 52.381 9.73 5.51 0.00 5.03
481 485 2.159085 GGTTATAAGGACTGTGCGCTCT 60.159 50.000 9.73 0.00 0.00 4.09
482 486 3.522553 GTTATAAGGACTGTGCGCTCTT 58.477 45.455 9.73 5.55 0.00 2.85
483 487 2.301577 ATAAGGACTGTGCGCTCTTC 57.698 50.000 9.73 6.04 0.00 2.87
484 488 1.257743 TAAGGACTGTGCGCTCTTCT 58.742 50.000 9.73 0.00 0.00 2.85
485 489 1.257743 AAGGACTGTGCGCTCTTCTA 58.742 50.000 9.73 0.00 0.00 2.10
486 490 1.479709 AGGACTGTGCGCTCTTCTAT 58.520 50.000 9.73 0.00 0.00 1.98
487 491 1.135915 AGGACTGTGCGCTCTTCTATG 59.864 52.381 9.73 0.00 0.00 2.23
488 492 1.134965 GGACTGTGCGCTCTTCTATGT 60.135 52.381 9.73 0.00 0.00 2.29
489 493 2.611518 GACTGTGCGCTCTTCTATGTT 58.388 47.619 9.73 0.00 0.00 2.71
490 494 3.428999 GGACTGTGCGCTCTTCTATGTTA 60.429 47.826 9.73 0.00 0.00 2.41
491 495 4.174009 GACTGTGCGCTCTTCTATGTTAA 58.826 43.478 9.73 0.00 0.00 2.01
492 496 4.177026 ACTGTGCGCTCTTCTATGTTAAG 58.823 43.478 9.73 0.00 0.00 1.85
493 497 2.930040 TGTGCGCTCTTCTATGTTAAGC 59.070 45.455 9.73 0.00 0.00 3.09
494 498 2.930040 GTGCGCTCTTCTATGTTAAGCA 59.070 45.455 9.73 0.00 33.21 3.91
495 499 3.370978 GTGCGCTCTTCTATGTTAAGCAA 59.629 43.478 9.73 0.00 33.75 3.91
496 500 3.370978 TGCGCTCTTCTATGTTAAGCAAC 59.629 43.478 9.73 0.00 33.21 4.17
497 501 3.242446 GCGCTCTTCTATGTTAAGCAACC 60.242 47.826 0.00 0.00 33.41 3.77
498 502 4.184629 CGCTCTTCTATGTTAAGCAACCT 58.815 43.478 0.00 0.00 33.41 3.50
499 503 4.033358 CGCTCTTCTATGTTAAGCAACCTG 59.967 45.833 0.00 0.00 33.41 4.00
500 504 4.938226 GCTCTTCTATGTTAAGCAACCTGT 59.062 41.667 0.00 0.00 33.41 4.00
501 505 6.106673 GCTCTTCTATGTTAAGCAACCTGTA 58.893 40.000 0.00 0.00 33.41 2.74
502 506 6.594159 GCTCTTCTATGTTAAGCAACCTGTAA 59.406 38.462 0.00 0.00 33.41 2.41
503 507 7.119262 GCTCTTCTATGTTAAGCAACCTGTAAA 59.881 37.037 0.00 0.00 33.41 2.01
504 508 9.167311 CTCTTCTATGTTAAGCAACCTGTAAAT 57.833 33.333 0.00 0.00 33.41 1.40
505 509 9.162764 TCTTCTATGTTAAGCAACCTGTAAATC 57.837 33.333 0.00 0.00 33.41 2.17
506 510 7.859325 TCTATGTTAAGCAACCTGTAAATCC 57.141 36.000 0.00 0.00 33.41 3.01
507 511 5.914898 ATGTTAAGCAACCTGTAAATCCC 57.085 39.130 0.00 0.00 33.41 3.85
508 512 4.083565 TGTTAAGCAACCTGTAAATCCCC 58.916 43.478 0.00 0.00 33.41 4.81
509 513 2.231716 AAGCAACCTGTAAATCCCCC 57.768 50.000 0.00 0.00 0.00 5.40
510 514 0.034477 AGCAACCTGTAAATCCCCCG 60.034 55.000 0.00 0.00 0.00 5.73
511 515 0.323087 GCAACCTGTAAATCCCCCGT 60.323 55.000 0.00 0.00 0.00 5.28
512 516 1.065272 GCAACCTGTAAATCCCCCGTA 60.065 52.381 0.00 0.00 0.00 4.02
513 517 2.618559 GCAACCTGTAAATCCCCCGTAA 60.619 50.000 0.00 0.00 0.00 3.18
514 518 3.688235 CAACCTGTAAATCCCCCGTAAA 58.312 45.455 0.00 0.00 0.00 2.01
515 519 4.080687 CAACCTGTAAATCCCCCGTAAAA 58.919 43.478 0.00 0.00 0.00 1.52
516 520 3.689347 ACCTGTAAATCCCCCGTAAAAC 58.311 45.455 0.00 0.00 0.00 2.43
517 521 3.331591 ACCTGTAAATCCCCCGTAAAACT 59.668 43.478 0.00 0.00 0.00 2.66
518 522 3.943381 CCTGTAAATCCCCCGTAAAACTC 59.057 47.826 0.00 0.00 0.00 3.01
519 523 3.943381 CTGTAAATCCCCCGTAAAACTCC 59.057 47.826 0.00 0.00 0.00 3.85
520 524 2.118313 AAATCCCCCGTAAAACTCCG 57.882 50.000 0.00 0.00 0.00 4.63
521 525 0.986527 AATCCCCCGTAAAACTCCGT 59.013 50.000 0.00 0.00 0.00 4.69
522 526 1.864669 ATCCCCCGTAAAACTCCGTA 58.135 50.000 0.00 0.00 0.00 4.02
523 527 1.864669 TCCCCCGTAAAACTCCGTAT 58.135 50.000 0.00 0.00 0.00 3.06
524 528 1.481772 TCCCCCGTAAAACTCCGTATG 59.518 52.381 0.00 0.00 0.00 2.39
525 529 1.207811 CCCCCGTAAAACTCCGTATGT 59.792 52.381 0.00 0.00 0.00 2.29
526 530 2.273557 CCCCGTAAAACTCCGTATGTG 58.726 52.381 0.00 0.00 0.00 3.21
527 531 2.094078 CCCCGTAAAACTCCGTATGTGA 60.094 50.000 0.00 0.00 0.00 3.58
528 532 3.184541 CCCGTAAAACTCCGTATGTGAG 58.815 50.000 0.00 0.00 35.92 3.51
529 533 3.184541 CCGTAAAACTCCGTATGTGAGG 58.815 50.000 5.70 0.00 34.06 3.86
530 534 3.184541 CGTAAAACTCCGTATGTGAGGG 58.815 50.000 5.70 0.00 34.06 4.30
531 535 2.781681 AAAACTCCGTATGTGAGGGG 57.218 50.000 5.70 0.00 34.06 4.79
532 536 0.909623 AAACTCCGTATGTGAGGGGG 59.090 55.000 5.70 0.00 39.71 5.40
533 537 0.042131 AACTCCGTATGTGAGGGGGA 59.958 55.000 5.70 0.00 35.33 4.81
561 593 6.989155 ATTAGTGTGAAGATCCCCGTAATA 57.011 37.500 0.00 0.00 0.00 0.98
576 608 4.444306 CCCGTAATACACCCATGATTGTCT 60.444 45.833 0.00 0.00 0.00 3.41
581 613 5.902613 ATACACCCATGATTGTCTGTTTG 57.097 39.130 0.00 0.00 0.00 2.93
582 614 3.565307 ACACCCATGATTGTCTGTTTGT 58.435 40.909 0.00 0.00 0.00 2.83
583 615 3.569701 ACACCCATGATTGTCTGTTTGTC 59.430 43.478 0.00 0.00 0.00 3.18
584 616 3.822735 CACCCATGATTGTCTGTTTGTCT 59.177 43.478 0.00 0.00 0.00 3.41
585 617 5.003160 CACCCATGATTGTCTGTTTGTCTA 58.997 41.667 0.00 0.00 0.00 2.59
586 618 5.473162 CACCCATGATTGTCTGTTTGTCTAA 59.527 40.000 0.00 0.00 0.00 2.10
587 619 5.707298 ACCCATGATTGTCTGTTTGTCTAAG 59.293 40.000 0.00 0.00 0.00 2.18
588 620 5.939883 CCCATGATTGTCTGTTTGTCTAAGA 59.060 40.000 0.00 0.00 0.00 2.10
589 621 6.600822 CCCATGATTGTCTGTTTGTCTAAGAT 59.399 38.462 0.00 0.00 0.00 2.40
590 622 7.121759 CCCATGATTGTCTGTTTGTCTAAGATT 59.878 37.037 0.00 0.00 0.00 2.40
591 623 8.517878 CCATGATTGTCTGTTTGTCTAAGATTT 58.482 33.333 0.00 0.00 0.00 2.17
592 624 9.552114 CATGATTGTCTGTTTGTCTAAGATTTC 57.448 33.333 0.00 0.00 0.00 2.17
593 625 7.796838 TGATTGTCTGTTTGTCTAAGATTTCG 58.203 34.615 0.00 0.00 0.00 3.46
594 626 7.655732 TGATTGTCTGTTTGTCTAAGATTTCGA 59.344 33.333 0.00 0.00 0.00 3.71
595 627 7.962964 TTGTCTGTTTGTCTAAGATTTCGAT 57.037 32.000 0.00 0.00 0.00 3.59
596 628 7.962964 TGTCTGTTTGTCTAAGATTTCGATT 57.037 32.000 0.00 0.00 0.00 3.34
597 629 7.796838 TGTCTGTTTGTCTAAGATTTCGATTG 58.203 34.615 0.00 0.00 0.00 2.67
598 630 6.738649 GTCTGTTTGTCTAAGATTTCGATTGC 59.261 38.462 0.00 0.00 0.00 3.56
599 631 5.617609 TGTTTGTCTAAGATTTCGATTGCG 58.382 37.500 0.00 0.00 39.35 4.85
600 632 4.857871 TTGTCTAAGATTTCGATTGCGG 57.142 40.909 0.00 0.00 38.28 5.69
601 633 3.857052 TGTCTAAGATTTCGATTGCGGT 58.143 40.909 0.00 0.00 38.28 5.68
602 634 3.863424 TGTCTAAGATTTCGATTGCGGTC 59.137 43.478 0.00 0.00 38.28 4.79
603 635 3.863424 GTCTAAGATTTCGATTGCGGTCA 59.137 43.478 0.00 0.00 38.28 4.02
604 636 3.863424 TCTAAGATTTCGATTGCGGTCAC 59.137 43.478 0.00 0.00 38.28 3.67
605 637 0.999406 AGATTTCGATTGCGGTCACG 59.001 50.000 0.00 0.00 44.63 4.35
633 665 7.606073 TCACCGAACTTGAAAATCATGATTCTA 59.394 33.333 20.95 7.15 0.00 2.10
715 1582 1.867233 GCCAAGTGGTATGATGCTACG 59.133 52.381 0.00 0.00 37.57 3.51
718 1585 3.430236 CCAAGTGGTATGATGCTACGTGA 60.430 47.826 13.15 0.00 31.07 4.35
730 1597 2.931246 TACGTGACGTAGGAGTGCA 58.069 52.632 14.50 0.00 41.54 4.57
735 1602 1.045407 TGACGTAGGAGTGCAAACCT 58.955 50.000 15.63 15.63 39.95 3.50
830 1697 2.337532 CGTTCCGTTGACCTCGGT 59.662 61.111 4.36 0.00 46.86 4.69
962 1832 4.782156 CGAATGCAATACAACTCAACACA 58.218 39.130 0.00 0.00 0.00 3.72
963 1833 4.612614 CGAATGCAATACAACTCAACACAC 59.387 41.667 0.00 0.00 0.00 3.82
966 1836 2.350388 GCAATACAACTCAACACACGGG 60.350 50.000 0.00 0.00 0.00 5.28
1021 1894 1.450848 TCGATCACCGGTCGTAGCT 60.451 57.895 2.59 0.00 39.91 3.32
1034 1907 4.451150 TAGCTTGGCCGCCGTCTG 62.451 66.667 4.58 0.00 0.00 3.51
1101 1974 2.807045 GTGCAGCCTCTGACGTCG 60.807 66.667 11.62 6.07 32.44 5.12
1275 2148 1.672356 CTGGTCCAAGAACTGCGGG 60.672 63.158 0.00 0.00 0.00 6.13
1359 2232 0.992072 CCACTGCGTTCATCTACACG 59.008 55.000 0.00 0.00 39.49 4.49
1380 2253 1.440518 CTGCGACGTCGATATCCCG 60.441 63.158 39.74 15.07 43.02 5.14
1540 2413 1.596934 GCGGAGGAGTGGTTCATGA 59.403 57.895 0.00 0.00 0.00 3.07
1626 2499 1.112950 TCCACACCTTGTACACGTCA 58.887 50.000 0.00 0.00 0.00 4.35
1836 2709 4.421479 CGCGCCGTCACCTTCTCT 62.421 66.667 0.00 0.00 0.00 3.10
1868 2741 2.045926 CAACAGGGCCTTCTCCGG 60.046 66.667 1.32 0.00 0.00 5.14
2050 2923 3.303135 ACGAGCTCGCCCTGAACA 61.303 61.111 34.83 0.00 44.43 3.18
2116 2989 2.113986 ACAACCTGGAGCTGTGCC 59.886 61.111 0.00 0.00 0.00 5.01
2374 3247 1.868251 GAGCTGGACTAACGCGTCG 60.868 63.158 14.44 9.87 34.75 5.12
2427 3300 4.890581 CACTAGTAGTATGCCCAGAACTCT 59.109 45.833 1.57 0.00 0.00 3.24
2456 3329 1.525718 ATGTCTTTGCATGTGCGCCA 61.526 50.000 4.18 2.31 45.83 5.69
2484 3371 6.080406 GTCAGCTTGCTTAGTTTGTTGATAC 58.920 40.000 0.00 0.00 0.00 2.24
2485 3372 5.762711 TCAGCTTGCTTAGTTTGTTGATACA 59.237 36.000 0.00 0.00 0.00 2.29
2521 3408 6.292328 GCAAGTTTCTTAATTGCAGTTCAACC 60.292 38.462 0.00 0.00 46.64 3.77
2527 3414 8.729805 TTCTTAATTGCAGTTCAACCAAAAAT 57.270 26.923 0.00 0.00 37.53 1.82
2528 3415 8.364129 TCTTAATTGCAGTTCAACCAAAAATC 57.636 30.769 0.00 0.00 37.53 2.17
2529 3416 8.203485 TCTTAATTGCAGTTCAACCAAAAATCT 58.797 29.630 0.00 0.00 37.53 2.40
2530 3417 9.474920 CTTAATTGCAGTTCAACCAAAAATCTA 57.525 29.630 0.00 0.00 37.53 1.98
2531 3418 7.951530 AATTGCAGTTCAACCAAAAATCTAG 57.048 32.000 0.00 0.00 37.53 2.43
2532 3419 6.463995 TTGCAGTTCAACCAAAAATCTAGT 57.536 33.333 0.00 0.00 0.00 2.57
2736 3623 7.603024 GGAGTTGCTAAACTTATCTGTGTAGTT 59.397 37.037 0.00 0.00 46.84 2.24
2748 3635 6.721571 ATCTGTGTAGTTATTTTGGTGTCG 57.278 37.500 0.00 0.00 0.00 4.35
2749 3636 4.992319 TCTGTGTAGTTATTTTGGTGTCGG 59.008 41.667 0.00 0.00 0.00 4.79
2780 3667 5.914898 AAAGACTGGTGCTTAAACTTGTT 57.085 34.783 0.00 0.00 0.00 2.83
2804 3691 2.490903 ACCGTGTACATACAGTGTCTCC 59.509 50.000 0.00 0.00 42.29 3.71
2811 3698 6.152323 GTGTACATACAGTGTCTCCTTCCTTA 59.848 42.308 0.00 0.00 42.29 2.69
2812 3699 6.895756 TGTACATACAGTGTCTCCTTCCTTAT 59.104 38.462 0.00 0.00 42.29 1.73
2813 3700 6.227298 ACATACAGTGTCTCCTTCCTTATG 57.773 41.667 0.00 0.00 35.77 1.90
2833 3731 4.367023 GACGTACACCCTGCCGCA 62.367 66.667 0.00 0.00 0.00 5.69
2865 3763 1.284657 CATGTCTGTGGCTAAGAGCG 58.715 55.000 0.00 0.00 43.62 5.03
2956 3854 5.055812 ACGTACGAAACCCTCAAATACAAA 58.944 37.500 24.41 0.00 0.00 2.83
3037 3936 1.474332 CCTGCACAATTTGGCCACCT 61.474 55.000 3.88 0.00 0.00 4.00
3040 3939 0.609662 GCACAATTTGGCCACCTGAT 59.390 50.000 3.88 0.00 0.00 2.90
3055 3954 4.274459 CCACCTGATAGAACTATGCTTTGC 59.726 45.833 0.00 0.00 0.00 3.68
3056 3955 4.877823 CACCTGATAGAACTATGCTTTGCA 59.122 41.667 0.00 0.00 44.86 4.08
3143 4042 7.600752 TGCATTGCCTACCTGTTTTATTTTTAC 59.399 33.333 6.12 0.00 0.00 2.01
3175 4074 7.710907 TCCAAATTCCTATTTAGTCTCATGACG 59.289 37.037 0.00 0.00 38.73 4.35
3280 4180 8.918202 ATTGTGTACTTTGAAGAGGTAAATCA 57.082 30.769 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
150 153 2.184322 GCTTCGCCGATGACCTCA 59.816 61.111 3.96 0.00 0.00 3.86
171 174 4.466015 TGAACCAGCAAAAAGAAGAAAGGT 59.534 37.500 0.00 0.00 0.00 3.50
189 192 7.448748 AACTTACAATCCACTAACATGAACC 57.551 36.000 0.00 0.00 0.00 3.62
224 227 9.588096 ACTGTAAATTCTTTAAACCTCAATCCT 57.412 29.630 0.00 0.00 0.00 3.24
269 272 6.876257 GCAATATACCTCTCTTTGGACATAGG 59.124 42.308 0.00 0.00 0.00 2.57
323 326 5.808540 TCAGAACCGTTTAATCCGTATTCAG 59.191 40.000 9.75 4.91 0.00 3.02
336 339 4.202245 TGCTAGCTAATCAGAACCGTTT 57.798 40.909 17.23 0.00 0.00 3.60
354 358 6.774656 CCCTTAATCTCCAATCAAACTATGCT 59.225 38.462 0.00 0.00 0.00 3.79
372 376 0.927029 GGTCCTGCTTCCCCCTTAAT 59.073 55.000 0.00 0.00 0.00 1.40
379 383 2.840753 TTGGTGGGTCCTGCTTCCC 61.841 63.158 0.00 0.00 43.67 3.97
389 393 0.948678 CGAATTTCACGTTGGTGGGT 59.051 50.000 0.00 0.00 44.50 4.51
396 400 0.688487 TCCCCTCCGAATTTCACGTT 59.312 50.000 0.00 0.00 0.00 3.99
397 401 0.249398 CTCCCCTCCGAATTTCACGT 59.751 55.000 0.00 0.00 0.00 4.49
404 408 2.815589 GCATTATTGCTCCCCTCCGAAT 60.816 50.000 2.33 0.00 45.77 3.34
405 409 1.476833 GCATTATTGCTCCCCTCCGAA 60.477 52.381 2.33 0.00 45.77 4.30
407 411 2.633860 GCATTATTGCTCCCCTCCG 58.366 57.895 2.33 0.00 45.77 4.63
417 421 3.314553 CCCCGTACGAGTAGCATTATTG 58.685 50.000 18.76 0.00 0.00 1.90
418 422 2.288640 GCCCCGTACGAGTAGCATTATT 60.289 50.000 18.76 0.00 0.00 1.40
419 423 1.271656 GCCCCGTACGAGTAGCATTAT 59.728 52.381 18.76 0.00 0.00 1.28
420 424 0.670162 GCCCCGTACGAGTAGCATTA 59.330 55.000 18.76 0.00 0.00 1.90
421 425 1.324740 TGCCCCGTACGAGTAGCATT 61.325 55.000 18.76 0.00 0.00 3.56
422 426 1.755395 TGCCCCGTACGAGTAGCAT 60.755 57.895 18.76 0.00 0.00 3.79
423 427 2.361483 TGCCCCGTACGAGTAGCA 60.361 61.111 18.76 16.13 0.00 3.49
425 429 0.030369 GATGTGCCCCGTACGAGTAG 59.970 60.000 18.76 3.09 0.00 2.57
426 430 1.386525 GGATGTGCCCCGTACGAGTA 61.387 60.000 18.76 4.25 0.00 2.59
427 431 2.718073 GGATGTGCCCCGTACGAGT 61.718 63.158 18.76 0.00 0.00 4.18
428 432 1.105167 TAGGATGTGCCCCGTACGAG 61.105 60.000 18.76 2.34 37.37 4.18
429 433 1.076850 TAGGATGTGCCCCGTACGA 60.077 57.895 18.76 0.00 37.37 3.43
430 434 1.066918 GTAGGATGTGCCCCGTACG 59.933 63.158 8.69 8.69 37.37 3.67
431 435 0.104304 CAGTAGGATGTGCCCCGTAC 59.896 60.000 0.00 0.00 37.37 3.67
432 436 1.046472 CCAGTAGGATGTGCCCCGTA 61.046 60.000 0.00 0.00 37.37 4.02
433 437 2.367202 CCAGTAGGATGTGCCCCGT 61.367 63.158 0.00 0.00 37.37 5.28
434 438 1.910580 AACCAGTAGGATGTGCCCCG 61.911 60.000 0.00 0.00 38.69 5.73
435 439 0.331616 AAACCAGTAGGATGTGCCCC 59.668 55.000 0.00 0.00 38.69 5.80
436 440 2.215942 AAAACCAGTAGGATGTGCCC 57.784 50.000 0.00 0.00 38.69 5.36
437 441 4.097892 CCATAAAAACCAGTAGGATGTGCC 59.902 45.833 0.00 0.00 38.69 5.01
438 442 4.097892 CCCATAAAAACCAGTAGGATGTGC 59.902 45.833 0.00 0.00 38.69 4.57
439 443 5.261216 ACCCATAAAAACCAGTAGGATGTG 58.739 41.667 0.00 0.00 38.69 3.21
440 444 5.530176 ACCCATAAAAACCAGTAGGATGT 57.470 39.130 0.00 0.00 38.69 3.06
441 445 9.635404 TTATAACCCATAAAAACCAGTAGGATG 57.365 33.333 0.00 0.00 38.69 3.51
442 446 9.862149 CTTATAACCCATAAAAACCAGTAGGAT 57.138 33.333 0.00 0.00 38.69 3.24
443 447 8.276477 CCTTATAACCCATAAAAACCAGTAGGA 58.724 37.037 0.00 0.00 38.69 2.94
444 448 8.276477 TCCTTATAACCCATAAAAACCAGTAGG 58.724 37.037 0.00 0.00 42.21 3.18
445 449 9.117183 GTCCTTATAACCCATAAAAACCAGTAG 57.883 37.037 0.00 0.00 0.00 2.57
446 450 8.838741 AGTCCTTATAACCCATAAAAACCAGTA 58.161 33.333 0.00 0.00 0.00 2.74
447 451 7.614192 CAGTCCTTATAACCCATAAAAACCAGT 59.386 37.037 0.00 0.00 0.00 4.00
448 452 7.614192 ACAGTCCTTATAACCCATAAAAACCAG 59.386 37.037 0.00 0.00 0.00 4.00
449 453 7.394923 CACAGTCCTTATAACCCATAAAAACCA 59.605 37.037 0.00 0.00 0.00 3.67
450 454 7.629866 GCACAGTCCTTATAACCCATAAAAACC 60.630 40.741 0.00 0.00 0.00 3.27
451 455 7.255569 GCACAGTCCTTATAACCCATAAAAAC 58.744 38.462 0.00 0.00 0.00 2.43
452 456 6.094325 CGCACAGTCCTTATAACCCATAAAAA 59.906 38.462 0.00 0.00 0.00 1.94
453 457 5.587043 CGCACAGTCCTTATAACCCATAAAA 59.413 40.000 0.00 0.00 0.00 1.52
454 458 5.120399 CGCACAGTCCTTATAACCCATAAA 58.880 41.667 0.00 0.00 0.00 1.40
455 459 4.699637 CGCACAGTCCTTATAACCCATAA 58.300 43.478 0.00 0.00 0.00 1.90
456 460 3.493699 GCGCACAGTCCTTATAACCCATA 60.494 47.826 0.30 0.00 0.00 2.74
457 461 2.745152 GCGCACAGTCCTTATAACCCAT 60.745 50.000 0.30 0.00 0.00 4.00
458 462 1.406341 GCGCACAGTCCTTATAACCCA 60.406 52.381 0.30 0.00 0.00 4.51
459 463 1.134491 AGCGCACAGTCCTTATAACCC 60.134 52.381 11.47 0.00 0.00 4.11
460 464 2.159085 AGAGCGCACAGTCCTTATAACC 60.159 50.000 11.47 0.00 0.00 2.85
461 465 3.166489 AGAGCGCACAGTCCTTATAAC 57.834 47.619 11.47 0.00 0.00 1.89
462 466 3.447586 AGAAGAGCGCACAGTCCTTATAA 59.552 43.478 11.47 0.00 0.00 0.98
463 467 3.024547 AGAAGAGCGCACAGTCCTTATA 58.975 45.455 11.47 0.00 0.00 0.98
464 468 1.827969 AGAAGAGCGCACAGTCCTTAT 59.172 47.619 11.47 0.00 0.00 1.73
465 469 1.257743 AGAAGAGCGCACAGTCCTTA 58.742 50.000 11.47 0.00 0.00 2.69
466 470 1.257743 TAGAAGAGCGCACAGTCCTT 58.742 50.000 11.47 2.43 0.00 3.36
467 471 1.135915 CATAGAAGAGCGCACAGTCCT 59.864 52.381 11.47 0.94 0.00 3.85
468 472 1.134965 ACATAGAAGAGCGCACAGTCC 60.135 52.381 11.47 0.00 0.00 3.85
469 473 2.285827 ACATAGAAGAGCGCACAGTC 57.714 50.000 11.47 5.21 0.00 3.51
470 474 2.751166 AACATAGAAGAGCGCACAGT 57.249 45.000 11.47 0.00 0.00 3.55
471 475 3.000724 GCTTAACATAGAAGAGCGCACAG 59.999 47.826 11.47 0.00 0.00 3.66
472 476 2.930040 GCTTAACATAGAAGAGCGCACA 59.070 45.455 11.47 0.00 0.00 4.57
473 477 2.930040 TGCTTAACATAGAAGAGCGCAC 59.070 45.455 11.47 2.25 36.17 5.34
474 478 3.245518 TGCTTAACATAGAAGAGCGCA 57.754 42.857 11.47 0.00 36.17 6.09
475 479 3.242446 GGTTGCTTAACATAGAAGAGCGC 60.242 47.826 0.00 0.00 36.17 5.92
476 480 4.033358 CAGGTTGCTTAACATAGAAGAGCG 59.967 45.833 0.00 0.00 36.17 5.03
477 481 4.938226 ACAGGTTGCTTAACATAGAAGAGC 59.062 41.667 0.00 0.00 0.00 4.09
478 482 8.547967 TTTACAGGTTGCTTAACATAGAAGAG 57.452 34.615 0.00 0.00 0.00 2.85
479 483 9.162764 GATTTACAGGTTGCTTAACATAGAAGA 57.837 33.333 0.00 0.00 0.00 2.87
480 484 8.398665 GGATTTACAGGTTGCTTAACATAGAAG 58.601 37.037 0.00 0.00 0.00 2.85
481 485 7.338449 GGGATTTACAGGTTGCTTAACATAGAA 59.662 37.037 0.00 0.00 0.00 2.10
482 486 6.826741 GGGATTTACAGGTTGCTTAACATAGA 59.173 38.462 0.00 0.00 0.00 1.98
483 487 6.039382 GGGGATTTACAGGTTGCTTAACATAG 59.961 42.308 0.00 0.00 0.00 2.23
484 488 5.889289 GGGGATTTACAGGTTGCTTAACATA 59.111 40.000 0.00 0.00 0.00 2.29
485 489 4.709886 GGGGATTTACAGGTTGCTTAACAT 59.290 41.667 0.00 0.00 0.00 2.71
486 490 4.083565 GGGGATTTACAGGTTGCTTAACA 58.916 43.478 0.00 0.00 0.00 2.41
487 491 3.446161 GGGGGATTTACAGGTTGCTTAAC 59.554 47.826 0.00 0.00 0.00 2.01
488 492 3.703921 GGGGGATTTACAGGTTGCTTAA 58.296 45.455 0.00 0.00 0.00 1.85
489 493 2.356330 CGGGGGATTTACAGGTTGCTTA 60.356 50.000 0.00 0.00 0.00 3.09
490 494 1.615919 CGGGGGATTTACAGGTTGCTT 60.616 52.381 0.00 0.00 0.00 3.91
491 495 0.034477 CGGGGGATTTACAGGTTGCT 60.034 55.000 0.00 0.00 0.00 3.91
492 496 0.323087 ACGGGGGATTTACAGGTTGC 60.323 55.000 0.00 0.00 0.00 4.17
493 497 3.353370 TTACGGGGGATTTACAGGTTG 57.647 47.619 0.00 0.00 0.00 3.77
494 498 4.081406 GTTTTACGGGGGATTTACAGGTT 58.919 43.478 0.00 0.00 0.00 3.50
495 499 3.331591 AGTTTTACGGGGGATTTACAGGT 59.668 43.478 0.00 0.00 0.00 4.00
496 500 3.943381 GAGTTTTACGGGGGATTTACAGG 59.057 47.826 0.00 0.00 0.00 4.00
497 501 3.943381 GGAGTTTTACGGGGGATTTACAG 59.057 47.826 0.00 0.00 0.00 2.74
498 502 3.619487 CGGAGTTTTACGGGGGATTTACA 60.619 47.826 0.00 0.00 0.00 2.41
499 503 2.938451 CGGAGTTTTACGGGGGATTTAC 59.062 50.000 0.00 0.00 0.00 2.01
500 504 2.571202 ACGGAGTTTTACGGGGGATTTA 59.429 45.455 0.00 0.00 37.78 1.40
501 505 1.352017 ACGGAGTTTTACGGGGGATTT 59.648 47.619 0.00 0.00 37.78 2.17
502 506 0.986527 ACGGAGTTTTACGGGGGATT 59.013 50.000 0.00 0.00 37.78 3.01
503 507 1.864669 TACGGAGTTTTACGGGGGAT 58.135 50.000 0.00 0.00 37.78 3.85
504 508 1.481772 CATACGGAGTTTTACGGGGGA 59.518 52.381 0.00 0.00 37.78 4.81
505 509 1.207811 ACATACGGAGTTTTACGGGGG 59.792 52.381 0.00 0.00 37.78 5.40
506 510 2.094078 TCACATACGGAGTTTTACGGGG 60.094 50.000 0.00 0.00 37.78 5.73
507 511 3.184541 CTCACATACGGAGTTTTACGGG 58.815 50.000 0.00 0.00 37.78 5.28
508 512 3.184541 CCTCACATACGGAGTTTTACGG 58.815 50.000 0.00 0.00 37.78 4.02
509 513 3.184541 CCCTCACATACGGAGTTTTACG 58.815 50.000 0.00 0.00 37.78 3.18
510 514 3.528532 CCCCTCACATACGGAGTTTTAC 58.471 50.000 0.00 0.00 37.78 2.01
511 515 2.502538 CCCCCTCACATACGGAGTTTTA 59.497 50.000 0.00 0.00 37.78 1.52
512 516 1.280998 CCCCCTCACATACGGAGTTTT 59.719 52.381 0.00 0.00 37.78 2.43
513 517 0.909623 CCCCCTCACATACGGAGTTT 59.090 55.000 0.00 0.00 37.78 2.66
514 518 0.042131 TCCCCCTCACATACGGAGTT 59.958 55.000 0.00 0.00 37.78 3.01
515 519 3.100896 ACTCCCCCTCACATACGGAGT 62.101 57.143 1.20 1.20 46.69 3.85
516 520 0.397254 ACTCCCCCTCACATACGGAG 60.397 60.000 0.00 0.00 44.74 4.63
517 521 0.042131 AACTCCCCCTCACATACGGA 59.958 55.000 0.00 0.00 0.00 4.69
518 522 1.784358 TAACTCCCCCTCACATACGG 58.216 55.000 0.00 0.00 0.00 4.02
519 523 4.417426 AATTAACTCCCCCTCACATACG 57.583 45.455 0.00 0.00 0.00 3.06
520 524 6.126854 ACACTAATTAACTCCCCCTCACATAC 60.127 42.308 0.00 0.00 0.00 2.39
521 525 5.968167 ACACTAATTAACTCCCCCTCACATA 59.032 40.000 0.00 0.00 0.00 2.29
522 526 4.788617 ACACTAATTAACTCCCCCTCACAT 59.211 41.667 0.00 0.00 0.00 3.21
523 527 4.019681 CACACTAATTAACTCCCCCTCACA 60.020 45.833 0.00 0.00 0.00 3.58
524 528 4.224370 TCACACTAATTAACTCCCCCTCAC 59.776 45.833 0.00 0.00 0.00 3.51
525 529 4.431378 TCACACTAATTAACTCCCCCTCA 58.569 43.478 0.00 0.00 0.00 3.86
526 530 5.189145 TCTTCACACTAATTAACTCCCCCTC 59.811 44.000 0.00 0.00 0.00 4.30
527 531 5.098663 TCTTCACACTAATTAACTCCCCCT 58.901 41.667 0.00 0.00 0.00 4.79
528 532 5.431179 TCTTCACACTAATTAACTCCCCC 57.569 43.478 0.00 0.00 0.00 5.40
529 533 6.056236 GGATCTTCACACTAATTAACTCCCC 58.944 44.000 0.00 0.00 0.00 4.81
530 534 6.056236 GGGATCTTCACACTAATTAACTCCC 58.944 44.000 0.00 0.00 0.00 4.30
531 535 6.056236 GGGGATCTTCACACTAATTAACTCC 58.944 44.000 0.00 0.00 0.00 3.85
532 536 5.753921 CGGGGATCTTCACACTAATTAACTC 59.246 44.000 0.00 0.00 0.00 3.01
533 537 5.189145 ACGGGGATCTTCACACTAATTAACT 59.811 40.000 0.00 0.00 0.00 2.24
561 593 3.565307 ACAAACAGACAATCATGGGTGT 58.435 40.909 2.28 2.28 0.00 4.16
576 608 5.390461 CCGCAATCGAAATCTTAGACAAACA 60.390 40.000 0.00 0.00 38.10 2.83
581 613 3.863424 TGACCGCAATCGAAATCTTAGAC 59.137 43.478 0.00 0.00 38.10 2.59
582 614 3.863424 GTGACCGCAATCGAAATCTTAGA 59.137 43.478 0.00 0.00 38.10 2.10
583 615 3.301835 CGTGACCGCAATCGAAATCTTAG 60.302 47.826 0.00 0.00 38.10 2.18
584 616 2.601314 CGTGACCGCAATCGAAATCTTA 59.399 45.455 0.00 0.00 38.10 2.10
585 617 1.393539 CGTGACCGCAATCGAAATCTT 59.606 47.619 0.00 0.00 38.10 2.40
586 618 0.999406 CGTGACCGCAATCGAAATCT 59.001 50.000 0.00 0.00 38.10 2.40
587 619 0.026285 CCGTGACCGCAATCGAAATC 59.974 55.000 0.00 0.00 38.10 2.17
588 620 0.672401 ACCGTGACCGCAATCGAAAT 60.672 50.000 0.00 0.00 38.10 2.17
589 621 1.286354 GACCGTGACCGCAATCGAAA 61.286 55.000 0.00 0.00 38.10 3.46
590 622 1.735198 GACCGTGACCGCAATCGAA 60.735 57.895 0.00 0.00 38.10 3.71
591 623 2.126228 GACCGTGACCGCAATCGA 60.126 61.111 0.00 0.00 38.10 3.59
592 624 2.431771 TGACCGTGACCGCAATCG 60.432 61.111 0.00 0.00 0.00 3.34
593 625 2.388232 GGTGACCGTGACCGCAATC 61.388 63.158 0.00 0.00 0.00 2.67
594 626 2.358247 GGTGACCGTGACCGCAAT 60.358 61.111 0.00 0.00 0.00 3.56
605 637 4.215399 TCATGATTTTCAAGTTCGGTGACC 59.785 41.667 0.00 0.00 0.00 4.02
651 684 0.819259 TTCAGTGACCAAGCTGCACC 60.819 55.000 1.02 0.00 33.14 5.01
715 1582 1.145803 GGTTTGCACTCCTACGTCAC 58.854 55.000 0.00 0.00 0.00 3.67
718 1585 2.028385 CCTAAGGTTTGCACTCCTACGT 60.028 50.000 8.98 0.00 33.27 3.57
735 1602 0.912486 GCAGAGGGGAAGCTTCCTAA 59.088 55.000 37.72 0.00 46.72 2.69
830 1697 1.476891 GTCGCTCAGATCCACTTGGTA 59.523 52.381 0.00 0.00 36.34 3.25
987 1857 2.761195 CGACATCGACGGGAGCTCA 61.761 63.158 17.19 0.00 43.02 4.26
1009 1882 4.078516 GGCCAAGCTACGACCGGT 62.079 66.667 6.92 6.92 0.00 5.28
1034 1907 3.909086 AACTGGAGGAGGCGCTTGC 62.909 63.158 7.64 4.64 38.11 4.01
1251 2124 2.281484 TTCTTGGACCAGTGGCGC 60.281 61.111 9.78 0.00 0.00 6.53
1344 2217 0.885879 AGGTCGTGTAGATGAACGCA 59.114 50.000 0.00 0.00 39.61 5.24
1359 2232 0.385723 GGATATCGACGTCGCAGGTC 60.386 60.000 32.19 23.61 39.60 3.85
1482 2355 3.695022 GACGACGATGTCCCGGTGG 62.695 68.421 0.00 0.00 32.61 4.61
1515 2388 2.202797 CACTCCTCCGCCGACATG 60.203 66.667 0.00 0.00 0.00 3.21
1519 2392 3.379445 GAACCACTCCTCCGCCGA 61.379 66.667 0.00 0.00 0.00 5.54
1626 2499 2.517402 TTGTTCCCGGCGTTGCTT 60.517 55.556 6.01 0.00 0.00 3.91
2043 2916 1.363744 GCGACTTGGAGATGTTCAGG 58.636 55.000 0.00 0.00 0.00 3.86
2050 2923 2.125512 GTGCGGCGACTTGGAGAT 60.126 61.111 12.98 0.00 0.00 2.75
2374 3247 2.309613 TGCTACATGGCCAAATCATCC 58.690 47.619 10.96 0.00 0.00 3.51
2456 3329 3.947834 ACAAACTAAGCAAGCTGACACTT 59.052 39.130 0.00 0.00 0.00 3.16
2583 3470 0.253044 GCTGGATCTGGTGGCTTACA 59.747 55.000 0.00 0.00 0.00 2.41
2692 3579 7.179694 AGCAACTCCAGTGTATTTAACTAGGTA 59.820 37.037 0.00 0.00 0.00 3.08
2693 3580 6.013639 AGCAACTCCAGTGTATTTAACTAGGT 60.014 38.462 0.00 0.00 0.00 3.08
2694 3581 6.407202 AGCAACTCCAGTGTATTTAACTAGG 58.593 40.000 0.00 0.00 0.00 3.02
2695 3582 8.997621 TTAGCAACTCCAGTGTATTTAACTAG 57.002 34.615 0.00 0.00 0.00 2.57
2696 3583 9.211485 GTTTAGCAACTCCAGTGTATTTAACTA 57.789 33.333 0.00 0.00 0.00 2.24
2709 3596 5.865085 ACACAGATAAGTTTAGCAACTCCA 58.135 37.500 0.00 0.00 42.89 3.86
2736 3623 6.939132 TTTGTAACTTCCGACACCAAAATA 57.061 33.333 0.00 0.00 0.00 1.40
2748 3635 3.883489 AGCACCAGTCTTTTGTAACTTCC 59.117 43.478 0.00 0.00 0.00 3.46
2749 3636 5.500645 AAGCACCAGTCTTTTGTAACTTC 57.499 39.130 0.00 0.00 0.00 3.01
2780 3667 2.153645 ACACTGTATGTACACGGTCGA 58.846 47.619 0.00 0.00 40.88 4.20
2804 3691 2.190981 GTGTACGTCCGCATAAGGAAG 58.809 52.381 0.00 0.00 42.77 3.46
2811 3698 2.577059 CAGGGTGTACGTCCGCAT 59.423 61.111 0.00 0.00 0.00 4.73
2812 3699 4.367023 GCAGGGTGTACGTCCGCA 62.367 66.667 0.00 0.00 0.00 5.69
2852 3750 3.399181 CCCCCGCTCTTAGCCACA 61.399 66.667 0.00 0.00 38.18 4.17
2880 3778 4.741239 ATCCTCGGGTGTGGGGCT 62.741 66.667 0.00 0.00 0.00 5.19
2981 3880 1.154197 GTTTCGAAACCCTTCCTCCG 58.846 55.000 27.01 0.00 32.82 4.63
2988 3887 0.822121 GGTGGCAGTTTCGAAACCCT 60.822 55.000 31.87 15.97 39.71 4.34
3037 3936 6.816134 TTTGTGCAAAGCATAGTTCTATCA 57.184 33.333 0.00 0.00 41.91 2.15
3040 3939 7.885297 AGAATTTTGTGCAAAGCATAGTTCTA 58.115 30.769 0.00 0.00 41.91 2.10
3082 3981 3.251245 CAGAGCGATACGATGGAACTACT 59.749 47.826 0.00 0.00 0.00 2.57
3160 4059 9.197694 GATAAGTTATGCGTCATGAGACTAAAT 57.802 33.333 0.00 0.00 42.73 1.40


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.